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General Information

The Digital Skills programme at the Netherlands eScience Center focuses on the foundational digital skills needed to put reproducible research into practice. The workshops we run cover the essentials of version control, online collaboration, reproducible code and good programming practices.

The key objective of a this workshop is to grow researchers’ software best practices skills to facilitate open and reproducible research. The workshops focus on methods to build modular, reusable, maintainable, sustainable, reproducible, testable, and robust software. It is assumed that participants already write code for their research, but no expertise is required.

Optional Introduction to Git on day 1. From practice, we know the level of experience with git varies a lot. Therefore we offer an optional ‘Introduction to version control with Git’ lesson on day 1 of the workshop. Please take this 1-minute Quiz to quickly self-assess your git knowledge. If you answered all questions correctly you can join the workshop from day 2 onwards. Otherwise, you should join the “Introduction to Git” session on day one.

Where: This training will take place online. The instructors will provide you with the information you will need to connect to this meeting.

When: February 14 - 17, 2022.

Requirements: Participants must have access to a computer with a Mac, Linux, or Windows operating system (not a tablet, Chromebook, etc.) that they have administrative privileges on. They should have a few specific software packages installed (listed below).

Accessibility: We are dedicated to providing a positive and accessible learning environment for all. Please notify the instructors in advance of the workshop if you require any accommodations or if there is anything we can do to make this workshop more accessible to you.

Contact: Please email or training@esciencecenter.nl for more information.

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Code of Conduct

Participants are expected to follow those guidelines:

• Use welcoming and inclusive language
• Be respectful of different viewpoints and experiences
• Gracefully accept constructive criticism
• Focus on what is best for the community
• Show courtesy and respect towards other community members

Syllabus

Syllabus

• Introduction to version control with Git
• Collaboration with Git and Github
• Testing
• Modular Code Development
• Continuous Integration
• Code Documentation

Schedule

All times in the schedule are in the CET timezone.

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Setup

To participate in this workshop, you will need access to software as described below. In addition, you will need an up-to-date web browser.

We maintain a list of common issues that occur during installation as a reference for instructors that may be useful on the Configuration Problems and Solutions wiki page.

Install the videoconferencing client

If you haven't used Zoom before, go to the official website to download and install the Zoom client for your computer.

Set up your workspace

Like other Carpentries workshops, you will be learning by "coding along" with the Instructors. To do this, you will need to have both the window for the tool you will be learning about (a terminal, RStudio, your web browser, etc..) and the window for the Zoom video conference client open. In order to see both at once, we recommend using one of the following set up options:

• Two monitors: If you have two monitors, plan to have the tool you are learing up on one monitor and the video conferencing software on the other.
• Two devices: If you don't have two monitors, do you have another device (tablet, smartphone) with a medium to large sized screen? If so, try using the smaller device as your video conference connection and your larger device (laptop or desktop) to follow along with the tool you will be learning about.
• Divide your screen: If you only have one device and one screen, practice having two windows (the video conference program and one of the tools you will be using at the workshop) open together. How can you best fit both on your screen? Will it work better for you to toggle between them using a keyboard shortcut? Try it out in advance to decide what will work best for you.

This blog post includes detailed information on how to set up your screen to follow along during the workshop.

Computer

Participants must work on a computer with a Mac, Linux, or Windows operating system (not a tablet, Chromebook, etc.) on which they have administrative privileges.

Software

To participate in this workshop, you will need to prepare the following (if you haven’t already):

• Install Shell and Git. Please refer to this page for installation instructions.
• Create a GitHub account. Please refer to this page for instructions.
• Set up an SSH connection to GitHub. Please refer to this page for instructions.
• Install Miniconda. Please refer to this page for instructions.
• Create a Conda environment for the workshop. Please refer to this page for instructions.